# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl hidden Markov model. # HMM and HMM E-value scores computed by SAM (c) 1992-2001 Regents of the University of California, Santa Cruz # Sequence Alignment and Modeling Software System # http://www.cse.ucsc.edu/research/compbio/sam.html # ----------------- Citations (SAM, SAM-T99, HMMs) -------------------- # R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: # Extension and analysis of the basic method, CABIOS 12:95-107, 1996. # K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting # remote protein homologies, Bioinformatics 14(10):846-856, 1998. # A. Krogh et al., Hidden Markov models in computational biology: # Applications to protein modeling, JMB 235:1501-1531, Feb 1994. # # FSSP representative for each protein chain taken from FSSP: # ------------------Citations (FSSP) ----------------------------------- # L. Holm and C. Sander (1996) Mapping the protein universe. Science 273:595-602. # #SCOP domains found in each protein chain taken from SCOP: # ------------------Citations (SCOP) ----------------------------------- #Murzin A. G., Brenner S. E., Hubbard T., Chothia C. (1995). #SCOP: a structural classification of proteins database for the investigation of sequences and structures. #J. Mol. Biol. 247, 536-540. Sequence_ID Length Target_Evalue FSSP-rep SCOP_domain SCOP_suid 5S 5N 12S 6S 12S 10N 6rxn 46 2.58e-01 1rb9 g.41.5.1 45222 1jh5A 144 3.58e-01 b.22.1.1 66697 1kxgA 152 4.36e-01 b.22.1.1 73145 1kmtA 141 3.55e+00 b.1.18.8 77442 1shdA 107 3.80e+00 1fmk d.93.1.1 40440 1o59A 355 4.58e+00 1b5eA 246 5.91e+00 1b5eA d.117.1.1 41056 1rhoA 145 6.01e+00 1rhoA b.1.18.8 21899 1bkb 136 6.03e+00 1bkb b.34.5.2 24609 b.40.4.5 25341 1my6A 199 7.05e+00 a.2.11.1 85232 d.44.1.1 85233 1iro 54 8.34e+00 1rb9 g.41.5.1 45223 1hdmA 201 9.10e+00 1iakA b.1.1.2 21583 d.19.1.1 38157 1a3yA 149 9.47e+00 1obpA b.60.1.1 27110 1l0sA 90 1.05e+01 b.81.2.1 73408 1evuA 731 1.05e+01 1f13A b.1.18.9 21883 b.1.5.1 22175 b.1.5.1 22176 d.3.1.4 37113 1k2eA 156 1.07e+01 d.113.1.1 72010 1d2qA 173 1.08e+01 1d4vB b.22.1.1 23894 1liuA 528 1.14e+01 b.58.1.1 77970 c.1.12.1 77971 c.49.1.1 77972 1o22A 170 1.17e+01 d.238.1.1 86557 1i88A 389 1.18e+01 c.95.1.2 66070 c.95.1.2 66071 1p32A 209 1.23e+01 1p32A d.25.1.1 38379 1rhoC 145 1.25e+01 1rhoA b.1.18.8 21901 1a76 326 1.26e+01 1a76 a.60.7.1 18091 c.120.1.2 33361 1fjgQ 105 1.27e+01 1fjfQ b.40.4.5 25352 2cuaA 135 1.42e+01 2cuaA b.6.1.2 23039 1ex0A 731 1.47e+01 1od2A 805 1.47e+01 c.14.1.4 86821 c.14.1.4 86822 1jotA 133 1.57e+01 1jotA 1rb9 53 1.58e+01 1rb9 g.41.5.1 45214 1uyrA 737 1.59e+01 1fsoA 139 1.59e+01 1rhoA b.1.18.8 60007 1e0tA 470 1.63e+01 1a49A b.58.1.1 27064 c.1.12.1 29292 c.49.1.1 33146 8rxnA 52 1.65e+01 1rb9 g.41.5.1 45215 1omzA 293 1.76e+01 c.68.1.15 87093 1gguA 731 1.80e+01 1f13A b.1.18.9 21885 b.1.5.1 22179 b.1.5.1 22180 d.3.1.4 37115 1c9oA 66 1.81e+01 1mjc b.40.4.5 25325 1kjvB 100 1.84e+01 b.1.1.2 77423 1gr3A 160 1.85e+01 b.22.1.1 65476 1jv4A 162 1.95e+01 b.60.1.1 67343 1s3iA 310 1.96e+01 1qy1A 174 1.99e+01 1i06A 180 2.00e+01 1mup b.60.1.1 27131 1q3oA 109 2.06e+01 1i05A 180 2.09e+01 1mup b.60.1.1 27130 1eal 127 2.10e+01 1hmt b.60.1.2 27227 1mup 166 2.10e+01 1mup b.60.1.1 27133 1f2fA 104 2.27e+01 1fmk d.93.1.1 40455 1shbA 104 2.30e+01 1fmk d.93.1.1 40425 1uisA 231 2.37e+01 1a49A 530 2.44e+01 1a49A b.58.1.1 27026 c.1.12.1 29255 c.49.1.1 33109 1f13A 731 2.48e+01 1f13A b.1.18.9 21877 b.1.5.1 22163 b.1.5.1 22164 d.3.1.4 37107 1shsA 147 2.48e+01 1shsA b.15.1.1 23675 1o4rA 108 2.51e+01 4rxn 54 2.53e+01 1rb9 g.41.5.1 45226 1dzkA 157 2.54e+01 1obpA b.60.1.1 27096 1iz6A 138 2.58e+01 b.34.5.2 76976 b.40.4.5 76977 1b0uA 262 2.63e+01 1b0uA c.37.1.12 32370 1shaA 104 2.69e+01 1fmk d.93.1.1 40424 1gwmA 153 2.75e+01 b.18.1.19 83348 1ois 223 2.78e+01 1a36A e.15.1.1 43267 1i8aA 189 2.85e+01 1i82A b.1.9.2 61951 4ubpC 570 2.87e+01 1ubpC b.92.1.1 28431 c.1.9.2 29053 1pnsB 234 2.92e+01 i.1.1.1 88169 1i82A 189 2.92e+01 1i82A b.1.9.2 61937 1ie7C 570 2.93e+01 1ubpC b.92.1.1 62315 c.1.9.2 62316 1liiA 363 2.93e+01 c.72.1.1 73921 1q1lA 401 2.96e+01 1ajw 145 3.08e+01 1rhoA b.1.18.8 21905 1rdg 53 3.12e+01 1rb9 g.41.5.1 45221 1mhcB 99 3.16e+01 1agdB b.1.1.2 20832 1j5eB 256 3.23e+01 c.23.15.1 71543 1i4uA 181 3.25e+01 b.60.1.1 61732 1el6A 219 3.36e+01 1el6B d.182.1.1 42606 1ku8A 133 3.39e+01 1ng5A 215 3.55e+01 1g7pB 99 3.58e+01 b.1.1.2 70155 1fzkB 99 3.66e+01 1agdB b.1.1.2 60151 1kpuB 99 3.66e+01 b.1.1.2 84458 1lk2B 99 3.66e+01 1fzoB 99 3.67e+01 1agdB b.1.1.2 60157 1yna 194 3.73e+01 1axkA b.29.1.11 24335 1nh1A 330 3.81e+01 1fjgB 256 3.81e+01 1fjfB c.23.15.1 31400 1ggtB 731 3.87e+01 1f13A b.1.18.9 21882 b.1.5.1 22173 b.1.5.1 22174 d.3.1.4 37112 1ubpC 570 3.90e+01 1ubpC b.92.1.1 28432 c.1.9.2 29054 1b4bA 71 3.91e+01 1b4aA d.74.2.1 39718 1derA 547 3.91e+01 1derA 1el6B 219 3.98e+01 1el6B d.182.1.1 42607 1n08A 163 3.99e+01 b.43.5.1 79730 1d4vB 163 4.00e+01 1d4vB b.22.1.1 23884